Danks et al. 2019 (PRJNA314019)
General Details
| Title | Genome-wide profiling of mTOR-dependent translation in Oikopleura dioica |
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| Organism | |
| Number of Samples | 24 |
| Release Date | 2016/03/01 00:00 |
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| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP071049 |
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| ENA | SRP071049 |
| GEO | GSE78807 |
| BioProject | PRJNA314019 |
Publication
| Title | |
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| Authors | Danks GB,Galbiati H,Raasholm M,Torres Cleuren YN,Valen E,Navratilova P,Thompson EM |
| Journal | BMC genomics |
| Publication Date | 2019 Nov 29 |
| Abstract | In phylogenetically diverse organisms, the 5' ends of a subset of mRNAs are trans-spliced with a spliced leader (SL) RNA. The functions of SL trans-splicing, however, remain largely enigmatic. We quantified translation genome-wide in the marine chordate, Oikopleura dioica, under inhibition of mTOR, a central growth regulator. Translation of trans-spliced TOP mRNAs was suppressed, consistent with a role of the SL sequence in nutrient-dependent translational control of growth-related mRNAs. Under crowded, nutrient-limiting conditions, O. dioica continued to filter-feed, but arrested growth until favorable conditions returned. Upon release from unfavorable conditions, initial recovery was independent of nutrient-responsive, trans-spliced genes, suggesting animal density sensing as a first trigger for resumption of development. Our results are consistent with a proposed role of trans-splicing in the coordinated translational down-regulation of nutrient-responsive genes under growth-limiting conditions. |
| PMC | PMC6883708 |
| PMID | 31783727 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| SRR3199149 | PRJNA314019 | Oikopleura dioica | Ribo-Seq |  |
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| SRR3199150 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199151 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199152 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199153 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199154 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199155 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199156 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199157 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199158 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199159 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199160 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199161 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199162 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199163 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199164 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199173 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199174 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199175 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199176 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199177 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199178 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199179 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| SRR3199180 | PRJNA314019 | Oikopleura dioica | Ribo-Seq | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) |
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